The company's visual effects division, Troublemaker Digital, is also located at the site, and uses six-core AMDOpteron processors and FirePro graphics accelerators on many of its productions. A second facility, Troublemaker Sound, is located in the hill country outside of Austin. It provides post-production sound and editing facilities, including a mixing and dubbing sound stage powered by a large Pro Tools installation, and a full Avid Unity-based editing system.

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The company was founded in 1991 as Los Hooligans Productions, taking its name from Rodriguez's own comic strip, Los Hooligans, which he wrote and illustrated for three years while attending the University of Texas at Austin. Rodriguez chose the name so fans of the strip would recognize it when they saw his films. The company was reincorporated as Troublemaker Studios in 2000.

In 2010, Rodriguez launched Quick Draw Productions, a production and financing company that would allow him greater freedom to develop and produce film and television projects. Aaron Kaufman and Iliana Nikolic are his partners in the venture. In 2012, an animation division, Quick Draw Animation, was launched. Both companies are based at Troublemaker Studios.

In 2006, Rodriguez launched Rodriguez International Pictures, a film and television production company that mainly focuses on the horror genre. Its name is an homage to the low-budget production company American International Pictures.